WormBase Tree Display for Variation: WBVar00531947
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WBVar00531947 | Evidence | Paper_evidence | WBPaper00036384 | |||||
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Name | Public_name | bp412 | ||||||
Sequence_details | Mapping_target | Y55F3AM | ||||||
SeqStatus | Pending_curation | |||||||
Variation_type | Allele | |||||||
Origin | Species | Caenorhabditis elegans | ||||||
Strain | WBStrain00008597 | |||||||
Laboratory | HZ | |||||||
Status | Live | |||||||
Affects | Gene | WBGene00021922 | ||||||
Interactor | WBInteraction000520089 | |||||||
WBInteraction000525193 | ||||||||
WBInteraction000525218 | ||||||||
WBInteraction000525234 | ||||||||
WBInteraction000525236 | ||||||||
WBInteraction000525237 | ||||||||
WBInteraction000525238 | ||||||||
WBInteraction000525244 | ||||||||
WBInteraction000525248 | ||||||||
WBInteraction000525287 | ||||||||
Description | Phenotype | WBPhenotype:0000067 | Paper_evidence | WBPaper00042320 | ||||
Curator_confirmed | WBPerson712 | |||||||
Remark | A few ALG-1 and ALG-2 aggregates were formed in autophagy mutants but the number of aggregates dramatically increased under certain stress conditions, unlike in Wild type controls. | Paper_evidence | WBPaper00042320 | |||||
Curator_confirmed | WBPerson712 | |||||||
WBPhenotype:0000119 | Paper_evidence | WBPaper00042320 | ||||||
Curator_confirmed | WBPerson712 | |||||||
Remark | Levels of endogenous AIN-1 protein, but not ain-1 mRNA, were increased in autophagy mutants. | Paper_evidence | WBPaper00042320 | |||||
Curator_confirmed | WBPerson712 | |||||||
WBPhenotype:0000243 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | The atg-3(bp412) mutation resulted in a significant increase in the duration time of cell corpses observed in embryos (Figure S1D) | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
In the piki-1(ok2346) mutant background, the atg-3(bp412) mutation resulted in a significant increase in the duration time of cell corpses observed in embryos, compared to piki-1(ok2346) controls (Figure S1D) | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Phenotype_assay | Genotype | piki-1(ok2346) | Paper_evidence | WBPaper00044390 | ||||
Curator_confirmed | WBPerson2987 | |||||||
WBPhenotype:0000679 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | Authors found that phagosomal association of GFP-RAB-5, which is recruited at early phagosome maturation stages, decreased significantly in atg-3(bp412) mutants (Figure 1D, G). | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
Authors found that phagosomal association of GFP-RAB-7, which is recruited at late phagosome maturation stages, decreased significantly in atg-3(bp412) mutants (Figure 1E, H). | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Phagosomal labeling by the lysosomal membrane protein LAAT-1 was reduced in atg-3(bp412) mutants (Figure 1F, I). | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Phenotype_assay | Genotype | GFP-RAB-5 | Paper_evidence | WBPaper00044390 | ||||
Curator_confirmed | WBPerson2987 | |||||||
GFP-RAB-7 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
LAAT-1-mCHERRY | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
WBPhenotype:0000885 | Paper_evidence | WBPaper00041694 | ||||||
Curator_confirmed | WBPerson2798 | |||||||
Remark | delayed engulfment of apoptotic corpses during embryogenesis | Paper_evidence | WBPaper00041694 | |||||
Curator_confirmed | WBPerson2798 | |||||||
WBPhenotype:0000961 | Paper_evidence | WBPaper00042320 | ||||||
Curator_confirmed | WBPerson712 | |||||||
Remark | In wild-type embryos, AIN-1::GFP was diffusely expressed in the cytoplasm during embryogenesis. In autophagy mutants AIN-1::GFP was strongly expressed and accumulated into a large number of aggregates. Expression of AIN-2::GFP, which is diffusely localized in wild-type embryos, was unaffected in autophagy mutant embryos. Translational fusion reporters for gfp::alg-1 and alg-2::gfp were both diffusely expressed in the cytoplasm of most embryonic cells. | Paper_evidence | WBPaper00042320 | |||||
Curator_confirmed | WBPerson712 | |||||||
WBPhenotype:0001181 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | The atg-3(bp412) mutation resulted in a significant increase in the number of cell corpses observed in embryos (Table 1, Figure S1A,B) | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
WBPhenotype:0001405 | Paper_evidence | WBPaper00042320 | ||||||
Curator_confirmed | WBPerson712 | |||||||
Remark | AIN-1::GFP aggregates largely colocalized with SQST-1 aggregates. AIN-1 colocalizes with known protein aggregates in autophagy mutants. GFP::ALG-1 and ALG-2::GFP aggregates also colocalized with SQST-1 aggregates but were separable from PGL granules in atg-3 mutants. | Paper_evidence | WBPaper00042320 | |||||
Curator_confirmed | WBPerson712 | |||||||
WBPhenotype:0001846 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | In atg-3(bp412) mutants, authors observed that the CED-1-GFP ring formed normally but persisted a little longer on phagosomes than in wild type, suggesting possible defects in phagosome maturation (Figure 1C). | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
Authors found that phagosomal association of GFP-RAB-5, which is recruited at early phagosome maturation stages, decreased significantly in atg-3(bp412) mutants (Figure 1D, G). | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Authors found that phagosomal association of GFP-RAB-7, which is recruited at late phagosome maturation stages, decreased significantly in atg-3(bp412) mutants (Figure 1E, H). | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Phagosomal labeling by the lysosomal membrane protein LAAT-1 was reduced in atg-3(bp412) mutants (Figure 1F, I). | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
atg-3(bp412) mutants exhibited no significant delay in the recruitment of phosphatidylinositol 3-phosphate (PI3P) to corpse-engulfing phagosomes, as determined by the PI3P marker YFP-2xFYVE (Figure 3B,H, S3C,D), but the duration of the phagosomal YFP-2xFYVE signal was shorter than in wild type (Figure 3B and G-I). | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Phenotype_assay | Genotype | CED-1-GFP | Paper_evidence | WBPaper00044390 | ||||
Curator_confirmed | WBPerson2987 | |||||||
GFP-RAB-5 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
GFP-RAB-7 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
LAAT-1-mCHERRY | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
YFP-2xFYVE, a marker for phosphatidylinositol 3-phosphate | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
WBPhenotype:0002349 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | Authors found significantly reduced YFP-2xFYVE labeling of cell corpses in atg-3(bp412) mutants, suggesting that phosphatidylinositol 3-phosphate (PtdIns3P) generation and/or accumulation on phagosomes is affected (Figure 2A, B). | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
Phenotype_assay | Genotype | YFP-2xFYVE, a marker for phosphatidylinositol 3-phosphate | Paper_evidence | WBPaper00044390 | ||||
Curator_confirmed | WBPerson2987 | |||||||
Phenotype_not_observed | WBPhenotype:0000114 | Paper_evidence | WBPaper00042320 | |||||
Curator_confirmed | WBPerson712 | |||||||
Remark | Mutants exhibited normal alg-1 and alg-2 and mRNA levels. | Paper_evidence | WBPaper00042320 | |||||
Curator_confirmed | WBPerson712 | |||||||
WBPhenotype:0000590 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | atg-3(bp412) mutants did not exhibit changes in the number of germ cell corpses that were observed in animals 48 hours post-L4 larval stage (Figure S1E) | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
WBPhenotype:0000701 | Paper_evidence | WBPaper00042320 | ||||||
Curator_confirmed | WBPerson712 | |||||||
Remark | mutants exhibited normal seam cell development | Paper_evidence | WBPaper00042320 | |||||
Curator_confirmed | WBPerson712 | |||||||
WBPhenotype:0000885 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | atg-3(bp412) mutants exhibited wild type kinetics of CED-1::GFP ring-like structure formation around cell corpses (Figure 1A,B) | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
Phenotype_assay | Genotype | CED-1-GFP | Paper_evidence | WBPaper00044390 | ||||
Curator_confirmed | WBPerson2987 | |||||||
WBPhenotype:0001301 | Paper_evidence | WBPaper00036384 | ||||||
Curator_confirmed | WBPerson712 | |||||||
Remark | P granules were spherical and evenly dispersed. Localization patterns were distinct from the localization of T12G3.1 fluorescent signals. | Paper_evidence | WBPaper00036384 | |||||
Curator_confirmed | WBPerson712 | |||||||
WBPhenotype:0001346 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | Actin cytoskeleton changes (assembly and disassembly) during cell corpse engulfment in atg-3(bp412) mutants were the same as in wild type (Fig. S2A and S2B) | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
Actin ring formation on corpse-engulfing phagosomes was not affected by the atg-3(bp412) mutation (Figure S3A,B), in the piki-1(ok2346) mutant background | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Phenotype_assay | Genotype | GFP-ACT-1 | Paper_evidence | WBPaper00044390 | ||||
Curator_confirmed | WBPerson2987 | |||||||
piki-1(ok2346); GFP-ACT-1 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
WBPhenotype:0001846 | Paper_evidence | WBPaper00044390 | ||||||
Curator_confirmed | WBPerson2987 | |||||||
Remark | Actin ring formation on corpse-engulfing phagosomes was not affected by the atg-3(bp412) mutation (Figure S3A,B), in the piki-1(ok2346) mutant background | Paper_evidence | WBPaper00044390 | |||||
Curator_confirmed | WBPerson2987 | |||||||
Phenotype_assay | Genotype | piki-1(ok2346); GFP-ACT-1 | Paper_evidence | WBPaper00044390 | ||||
Curator_confirmed | WBPerson2987 | |||||||
Reference | WBPaper00041694 | |||||||
WBPaper00036384 | ||||||||
WBPaper00042320 | ||||||||
WBPaper00044390 | ||||||||
WBPaper00065267 | ||||||||
WBPaper00065712 | ||||||||
Method | Allele |